Tools for the biologist enabling optimized use of gene trap clones

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UniTrap UNI25514
Trapped Gene
Ccnt1 (ENSMUSG00000011960)
Vector Insertion
Chr 15: 98375040 - 98376954
Public Clones H005C06 (ggtc) H005C06 (ggtc)
Private Clones OST180273 (lexicon)
Severity of mutation (?) Insertion after 36% of polypeptide chain

Suggested RT-PCR (?)
Control PCR for the trapped allele
Upstream Exon
ENSMUSE00000270648 (Chr15:98376955..98377025 -)
Vector Sequence
Forward Primer Location Tm %GC LacZrt Reverse Primer Location
No primer for this exon TGGCGAAAGGGGGATGTG Gene trap vector
 
 
Control PCR for the wild-type allele
Upstream Exon
ENSMUSE00000270648 (Chr15:98376955..98377025 -)
Downstram Exon
ENSMUSE00000270638 (Chr15:98373642..98375039 -)
Forward Primer Location Tm %GC Reverse Primer Location Tm %GC
No primer for this exon No primer for this exon

Other possible Exon-Primers for RT-PCR (?)
  Exon ID Exon location Forward Primer Primer location Tm %GC
upstream ENSMUSE00000679188 Chr15:98401302..98401354 No primer for this exon
upstream ENSMUSE00000368014 Chr15:98397907..98398714 No primer for this exon
upstream ENSMUSE00000132453 Chr15:98395478..98395559 No primer for this exon
upstream ENSMUSE00000132454 Chr15:98390628..98390756 No primer for this exon
upstream ENSMUSE00000132447 Chr15:98385032..98385092 No primer for this exon
upstream ENSMUSE00000132446 Chr15:98382345..98382407 No primer for this exon
upstream ENSMUSE00000132451 Chr15:98379097..98379142 No primer for this exon
upstream ENSMUSE00000132450 Chr15:98377176..98377339 No primer for this exon
upstream ENSMUSE00000270648 Chr15:98376955..98377025 No primer for this exon

*** Putative Vector Insertion (Chr 15: 98375040 - 98376954) ***

  Exon ID Exon location Reverse Primer Primer location Tm %GC
downstream ENSMUSE00000270638 Chr15:98373642..98375039 No primer for this exon

Suggested Genomic-PCR (?)
  Forward Forward location Tm %GC Reverse name Reverse Reverse Location
PCR 1 ACCAGTGATAATCGCCTTGC Chr15:98376891..98376911 60.1 50 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 2 GAAAACTCCAAGCAGGCTGA Chr15:98376973..98376993 60.52 50 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector
PCR 3 TTCCTACAATGACCCAGTTGC Chr15:98376981..98377002 59.99 47.62 L232 GATGTGCTGCAAGGCGATTA Gene trap vector
PCR 4 TTCCTACAATGACCCAGTTGC Chr15:98376981..98377002 59.99 47.62 LacZ CCAGGGTTTTCCCAGTCACG Gene trap vector

Come back to gene ENSMUSG00000011960